Variant report

Variant	rs3807005
Chromosome Location	chr6:109791110-109791111
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109765568..109767233-chr6:109789401..109791135,2	MCF-7	breast:
2	chr6:109785460..109788370-chr6:109788887..109793014,3	K562	blood:
3	chr6:109760223..109762958-chr6:109790032..109792982,2	K562	blood:
4	chr6:109786175..109787997-chr6:109790451..109793066,2	K562	blood:
5	chr6:109775385..109780026-chr6:109787394..109791434,6	K562	blood:
6	chr6:109789452..109792646-chr6:109795758..109798089,3	K562	blood:
7	chr6:109775385..109779636-chr6:109787721..109791434,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000135596	Chromatin interaction
ENSG00000135587	Chromatin interaction
ENSG00000185250	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs10080429	0.86[EUR][1000 genomes]
rs1040284	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10457190	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10457192	0.85[ASN][1000 genomes]
rs10457194	0.83[ASN][1000 genomes]
rs10457195	0.81[ASN][1000 genomes]
rs1048203	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10782161	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10782162	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10782163	0.85[ASN][1000 genomes]
rs10872032	0.83[EUR][1000 genomes]
rs10872034	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11153174	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11153175	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11153176	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11153177	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11153180	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11153181	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11153183	0.85[ASN][1000 genomes]
rs11153188	0.81[ASN][1000 genomes]
rs11754455	0.85[ASN][1000 genomes]
rs11967108	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12190920	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190996	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12192847	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12193493	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12194061	0.81[ASN][1000 genomes]
rs12197114	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12197180	0.84[ASN][1000 genomes]
rs12198938	0.85[ASN][1000 genomes]
rs12199154	0.85[ASN][1000 genomes]
rs12206928	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12208933	0.81[EUR][1000 genomes]
rs12209691	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12212476	0.85[ASN][1000 genomes]
rs12213313	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12524273	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12524639	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12528822	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13201951	0.83[ASN][1000 genomes]
rs13203587	0.85[ASN][1000 genomes]
rs13212766	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13220915	0.85[ASN][1000 genomes]
rs1322816	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1358997	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1358998	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1406899	0.85[ASN][1000 genomes]
rs1476388	0.85[ASN][1000 genomes]
rs1546980	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1590306	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17070580	0.87[EUR][1000 genomes]
rs1923725	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1998811	0.85[ASN][1000 genomes]
rs2024849	0.85[ASN][1000 genomes]
rs2024850	0.85[ASN][1000 genomes]
rs2024852	0.85[ASN][1000 genomes]
rs2024853	0.85[ASN][1000 genomes]
rs2208209	0.81[EUR][1000 genomes]
rs2236582	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2275650	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2277114	0.85[ASN][1000 genomes]
rs34202013	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35056702	0.87[EUR][1000 genomes]
rs36035949	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs36099706	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3757234	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3778475	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3778477	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3799839	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3818934	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59056467	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59906308	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs68042406	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6906216	0.83[ASN][1000 genomes]
rs6911838	0.92[EUR][1000 genomes]
rs6916579	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6926096	0.83[ASN][1000 genomes]
rs6929023	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7372	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs749517	0.85[ASN][1000 genomes]
rs752262	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7755941	0.85[ASN][1000 genomes]
rs7773095	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7773950	0.85[ASN][1000 genomes]
rs9320287	0.87[EUR][1000 genomes]
rs9480933	0.82[EUR][1000 genomes]
rs9480948	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9480951	0.87[EUR][1000 genomes]
rs9480953	0.87[EUR][1000 genomes]
rs9480955	0.87[EUR][1000 genomes]
rs9480957	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9487068	0.85[EUR][1000 genomes]
rs9487094	0.87[EUR][1000 genomes]
rs9487095	0.87[EUR][1000 genomes]
rs9487097	0.83[EUR][1000 genomes]
rs9487098	0.83[EUR][1000 genomes]
rs9487100	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9885646	0.87[EUR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs3807005	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs3807005	MICAL1	Cis_1M	lymphoblastoid	RTeQTL
rs3807005	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs3807005	RP11-425D10.10	cis	Esophagus Mucosa	GTEx
rs3807005	SMPD2	cis	Whole Blood	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109778400-109791400	Weak transcription	Colonic Mucosa	Colon
2	chr6:109778800-109798800	Weak transcription	Small Intestine	intestine
3	chr6:109780600-109800400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:109781400-109802200	Strong transcription	HSMM	muscle
5	chr6:109782000-109798800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:109782000-109799000	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr6:109782200-109792400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:109782400-109797600	Strong transcription	Dnd41	blood
9	chr6:109782400-109797800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:109782400-109798000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:109782400-109798200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:109782400-109798800	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr6:109782400-109798800	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:109782400-109798800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:109782400-109798800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:109782400-109799000	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:109782400-109799000	Strong transcription	Placenta	Placenta
18	chr6:109782400-109799200	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr6:109782400-109799800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:109782400-109799800	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr6:109782400-109800000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:109782400-109803000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:109782600-109797800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:109782600-109799600	Strong transcription	Fetal Muscle Trunk	muscle
25	chr6:109782600-109800000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:109782800-109792600	Strong transcription	Primary B cells from peripheral blood	blood
27	chr6:109783000-109797800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:109783000-109798000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:109783000-109798200	Strong transcription	Adipose Nuclei	Adipose
30	chr6:109783200-109799800	Strong transcription	Cortex derived primary cultured neurospheres	brain
31	chr6:109783600-109799000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:109785000-109794000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:109785200-109794800	Strong transcription	HMEC	breast
34	chr6:109785200-109796800	Strong transcription	Liver	Liver
35	chr6:109785600-109797800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:109785600-109798200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:109785600-109799200	Strong transcription	Primary hematopoietic stem cells	blood
38	chr6:109785800-109793200	Strong transcription	A549	lung
39	chr6:109785800-109796400	Strong transcription	Primary T cells from cord blood	blood
40	chr6:109785800-109798800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
41	chr6:109786000-109793000	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr6:109786000-109794600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
43	chr6:109786000-109797800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr6:109786200-109797000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr6:109786200-109797600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr6:109786200-109798200	Strong transcription	Osteobl	bone
47	chr6:109786200-109800200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr6:109786400-109792200	Strong transcription	GM12878-XiMat	blood
49	chr6:109786400-109799600	Strong transcription	Fetal Muscle Leg	muscle
50	chr6:109786600-109795000	Strong transcription	NHEK	skin

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